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MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
Official implementation of "Learning the language of protein structures"
✌🏻 Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures (NeurIPS 2022)
This repo contains the codes for our paper Conditional Antibody Design as 3D Equivariant Graph Translation.
A series of scripts that facilitate the prediction of protein structures in multiple conformations using AlphaFold2
LIT-AlphaFold is a modified version of AlphaFold developed in the Laboratoire d'Innovation Thérapeutique (LIT) at the University of Strasbourg.
The official implementation of the AAAI'24 paper Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer.
VESPA is a simple, yet powerful Single Amino Acid Variant (SAV) effect predictor based on embeddings of the Protein Language Model ProtT5.
Zero-shot prediction of mutation effects on protein function with multimodal deep representation learning
Expert-Guided Protein Language Models enable Accurate and Blazingly Fast Fitness Prediction
Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2024).
Augmenting zero-shot mutant prediction by retrieval-based logits fusion.
A benchmark for 3D biomolecular structure prediction models
Democratizing AlphaFold3: an PyTorch reimplementation to accelerate protein structure prediction
Implementation of MapDiff: "Mask prior-guided denoising diffusion improves inverse protein folding" in PyTorch
Improved antibody structure-based design using inverse folding
An unofficial implementation of AlphaFold 3 in Google Colab (Jupyter)
Multimodal generation of protein sequence and all-atom structure using latent diffusion, with compositional function and taxonomic prompts. http://bit.ly/plaid-proteins
Making Protein folding accessible to all!
Robust and Precise Protein Solubility Predictor by utilizing Novel Protein Sequence Encoder
Code for ProSST: A Pre-trained Protein Sequence and Structure Transformer with Disentangled Attention.
Official repository for the Boltz-1 biomolecular interaction model